Open williambrandler opened 2 years ago
I would like to write simulated individuals (not families) out to ped, how do I generate the fam file?
I tried this
vcf = readVCF( vcf_file, maxNumberOfVariants = 600 , min_maf = 0.01, max_maf = 1) startSimulation(vcf, totalNumberOfIndividuals = 1000) ids = generateUnrelatedIndividuals(1000) fam <- as.data.frame(ids, col.names = c("id")) fam[["fid"]] <- fam[["ids"]] fam[["id"]] <- fam[["ids"]] fam[["father"]] <- 0 fam[["mother"]] <- 0 fam$sex <- sample(0:1, size = nrow(fam), replace = TRUE) fam[["gtindex"]] <- fam[["ids"]] fam = subset(fam, select = -c(1))
but when I write to ped I get: writePED(genotype, fam, filename = "/path/to/ped/out")
writePED(genotype, fam, filename = "/path/to/ped/out")
Error : $ operator is invalid for atomic vectors Some( Error: $ operator is invalid for atomic vectors )
Error: $ operator is invalid for atomic vectors
Please point me in the right direction to write out simulated genotypes for individuals!
I would like to write simulated individuals (not families) out to ped, how do I generate the fam file?
I tried this
but when I write to ped I get:
writePED(genotype, fam, filename = "/path/to/ped/out")
Error : $ operator is invalid for atomic vectors Some(
Error: $ operator is invalid for atomic vectors
)Please point me in the right direction to write out simulated genotypes for individuals!